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GeoMx® Protein Assays for Neuroscience

GeoMx® Protein Assays for Neuroscience

Prosigna Score / ROR Score:

The ROR Score has been validated to predict the risk of recurrence of disease in ER+ breast cancer after surgery and treatment with 5 years of endocrine therapy. The ROR score depends upon the biology of the intrinsic subtypes, the proliferation score of the tumor, and the tumor size as shown in the equation below:

ROR = aRLumA + bRLumB + cRHer2 + dRBasal + eP + fT

Each of the R variables in the equation above indicate the Pearson correlation coefficient of the PAM50 expression profile for the tumor compared to each of the prototypical centroids for the intrinsic subtypes shown in the heatmap below. P is the proliferation score, which is the average gene expression profile of genes associated with cell-cycle progression and T is the tumor stage.

Figure: Heatmap of PAM50 genes by subtype. Red is higher expression and green is lower expression

GeoMx® Protein Assays for Neuroscience
  • Designed to provide flexible and comprehensive coverage of key neural cell types and neurodegenerative disease pathology. With a modular design, profile up to 96 curated protein targets with spatial resolution from a single tissue section using the GeoMxDigitalSpatial Profiler (DSP).

GeoMx DSP COVID-19 Protein and RNA Analysis

  • Rapidly perform high-plex spatial analyses of the host response in FFPE or fresh frozen tissue using the  GeoMx Digital Spatial Profiler (DSP). NanoString’s GeoMx DSP platform enables high-plex protein and RNA experiments in key areas of biology such as molecular response, cellular (immune) response, tissue damage, and drivers of individual susceptibility to severe forms of disease.

  • The GeoMx COVID-19 Immune Response Atlas, a ~1,850-plex RNA assay, enables spatial studies of the SARS-CoV-2 virus and host response. RNA targets include COVID-19 receptors and proteases, pulmonary alveolar type I and II markers, lung biology markers, viral response markers, and SARS-CoV-2 probes. RNA targets are profiled simultaneously using the GeoMx DSP and an Illumina next-generation sequencer (NGS) for readout. Users can run ACD RNAscope™ probes alongside GeoMx RNA probes to identify regions of interest.

  • A five-antibody custom, ready-to-go protein panel, with receptor, protease, and viral markers is available through the GeoMx Technology Access Program or for order through Abcam. This  COVID-19 GeoMx-formatted Antibody  is run with the 20-plex GeoMx Immune Cell Profiling Core (plus controls) with readout on the nCounter Analysis System. Users can add up to six 10-plex modules including the Immune Activation Status, Immune Cell Typing, and/or Cell Death modules to more deeply profile proteins involved in T cell activation and cell death. NanoString scientists can recommend commercially-available markers for lung epithelium, nasal epithelium, immune response markers, and the viral spike protein.

Modular Design

Modular design allows selection of up to six 10-plex modules to add to the Immune Cell Profiling Core

Pre-Validated

Pre-validated in multiplex format for use in human and mouse FFPE or fresh frozen tissue

Customizable

Customizable with up to 10 additional targets of interest

Compatible

For use with nCounter readout and compatible with DSP Data Center Software

Spatial Protein Profiling with High Specificity

The eight essential components of stem cell biology

Stemness
Pluripotency
Regulatory Signaling
Epigenetics
Mechano-Signaling
Metabolism
Differentiation Signaling
Lineage Specification

Stem Cell Renewal:

  • Stem Cell Prolifiration

  • Cell Cycle

  • Senescence/Quiescence

  • Autophagy

  • Apoptosis

  • Anti-Apoptosis

  • PSC Pluripotency Markers and Regulators

  • Naive State/Primed State

Regulatory Pathways:​

  • Wnt/B-catenin Pathway

  • Hedgehog Signaling

  • AP-1 Signaling

  • PI3K-AKTmTOR Pathway

  • MAPK Pathway

  • JAK/STAT Pathway

  • Notch Signaling

Epigenetic Mechanism:

  • DNA Methylation

  • Histone Acetylation & Methylation

Mechano-Signaling:

  • Rho/ROCK Signaling

  • integrin/Cadherin Signaling

  • Hippo Pathway

Metabolism:

  • Oxidative Stress Response

  • Hypoxia Response

  • Amino Acid Metabolism

  • Fatty Acid Metabolism

  • Glutamine Metabolism

  • Glucose Metabolism

Differentiation Signaling and Pathways:

  • TGFB Signaling

  • Cytoskeletal Reorganization

  • MET/EMT Signaling

  • HOX Gene Activation

Differentiation Lineage:

  • Endodermal /Ectodermal /Mesodermal Lineage Markers

  • Key Somatic Cell Types

Custom & Clinical Products

Assay Type
Product
Maximum Targets
Daily Sample Throughput
Analytes Offered
Common Applications

Custom codeSets

Elements TagSets

PlexSet Reagents

Self-assembled, interchangeable probes, optimized for smaller validation projects with maximum flexibility

Self-assembled, interchangeable probes for high-throughput, sample multiplexing projects

User-designed, turn-key solution that comes ready-to-use

216

96

800

24-96

24-96

192-1152

mRNA, CNV, Fusions

mRNA, Fusions

mRNA, miRNA, CNV, Fusions

Cell line drug screen, biomarker development, infectious disease

Gene Signature Development

Model Organism, Microbes, Agriculture

Protein core including 20 targets for human neural cell profiling plus positive and negative controls. Includes AbMix and Probe R1 for 48 AOI per slide. Can be run as a standalone panel.

Description

12 slides

Pack Size

GMX-PROCO-NCTHNCP-12

SKU

Protein module including 10 targets for human AD pathology. Includes AbMix and Probe R2 for 48 AOI per slide. Must be run with a protein core

Description

12 slides

Pack Size

GMX-PROMOD-NCTHADP-12

SKU

Protein module including 10 targets for human AD pathology. Includes AbMix and Probe R4 for 48 AOI per slide. Must be run with a protein core.

Description

12 slides

Pack Size

GMX-PROMOD-NCTHADEP-12

SKU

Protein module including 10 targets for human PD pathology. Includes AbMix and Probe R3 for 48 AOI per slide. Must be run with a protein core.

Description

12 slides

Pack Size

GMX-PROMOD-NCTHPDP-12

SKU

Protein module including 10 targets for human autophagy. Includes AbMix and Probe R5 for 48 AOI per slide. Must be run with a protein core.

Description

12 slides

Pack Size

GMX-PROMOD-NCTHA-12

SKU

Protein module including 10 targets for human glial cell subtyping. Includes AbMix and Probe R6 for 48 AOI per slide. Must be run with a protein core.

Description

12 slides

Pack Size

GMX-PROMOD-NCTHGCS-12

SKU

Protein core including 19 targets for mouse neural cell profiling plus positive and negative controls. Includes AbMix and Probe R1 for 48 AOI per slide. Can be run as a stand alone panel.

Description

12 slides

Pack Size

GMX-PROCO-NCTMNCP-12

SKU

Protein module including 8 targets for mouse AD pathology. Includes AbMix and Probe R2 for 48 AOI per slide. Must be run with a protein core.

Description

12 slides

Pack Size

GMX-PROMOD-NCTMADP-12

SKU

Protein module including 9 targets for mouse AD pathology. Includes AbMix and Probe R4 for 48 AOI per slide. Must be run with a protein core.

Description

12 slides

Pack Size

GMX-PROMOD-NCTMADEP-12

SKU

Protein module including 9 targets for mouse PD pathology. Includes AbMix and Probe R3 for 48 AOI per slide. Must be run with a protein core.

Description

12 slides

Pack Size

GMX-PROMOD-NCTMPDP-12

SKU

Protein module including 10 targets for mouse autophagy. Includes AbMix and Probe R5 for 48 AOI per slide. Must be run with a protein core.

Description

12 slides

Pack Size

GMX-PROMOD-NCTMA-12

SKU

Protein module including 10 targets for mouse glial cell subtyping. Includes AbMix and Probe R6 for 48 AOI per slide. Must be run with a protein core.

Description

12 slides

Pack Size

GMX-PROMOD-NCTMGCS-12

SKU

Morphology kit for visualization of human and mouse AD or other brain samples. For use with protein assays. Includes fluroescent antibodies against amyloid-beta, Iba1, and a nuclear stain.

Description

12 slides

Pack Size

GMX-PRO-MORPHHAD-12

SKU

Morphology kit for visualization of human and mouse PD or other brain samples. For use with protein assays. Includes fluroescent antibodies against alpha-synuclein, MAP-2, and a nuclear stain.

Description

12 slides

Pack Size

GMX-PRO-MORPHHPD-12

SKU

Sample prep reagents for GeoMx DSP protein analysis. Includes Buffer W and Buffer S.

Description

12 slides

Pack Size

GMX-PREP-PRO-FFPE-12

SKU

nCounter readout reagents for GeoMx DSP protein analysis. Includes Hyb Code A-H, Probe U, and additional hybridization buffer.

Description

96 AOI

Pack Size

GMX-PRO-HYB-96

SKU

Barcoded collection plates for use on the GeoMx DSP. Required for AOI tracking. Kit includes 4 plates covering 384 AOI.

Description

1 Pack

Pack Size

GMX-DSP-COLL-PLT-4

SKU

Buffer kit for the GeoMx DSP. Includes Buffer S and Buffer H. Sufficient for ~48 samples with ~18 AOI each. Volume requirements may vary based on experimental design.

Description

I Kit

Pack Size

GMX-DSP-BUFF-KIT

SKU

nCounter Master Kit:

Reagents, cartridges, and consumables necessary for sample processing on nCounter MAX and FLEX Systems

Description

96 AOI

Pack Size

NAA-AKIT-012

SKU

nCounter Sprint Cartridge:

Sample Cartridge for nCounter SPRINT System

Description

96 AOI

Pack Size

SPRINT-CAR-1.0

SKU
SKU
Description
Pack Size

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